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I have the same issue with this #1310 unable to resolve. The error happens when searching specific PTM modifications search, like below. I used TMT11 plex. The monoisotopic mass of 156.1151 on CHK and…
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Hi @theGreatHerrLebert , Thansks for your great work! I followed the README documentation but got PSM all scored as 1. So, how do I calculate and get the posterior error, spectrum q, peptide q, protei…
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### PXD001819 Analysis
Currently, we have a workflow that can perform peptide identification using: `-> ms2rescore -> SNR + spectrum properties -> percolator`
Here the results can be found (http…
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hi pyAscore team.
I have a problem that my mass spectrometry data had two modifications to K, and when I submitted the code, the following example spectral data data seemed to be wrong. , and two K m…
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Sage 0.14.7 has been working great for me so far. However, I found a few circumstances when I couldn't explain why it didn't at least list a possible peptide within the top 500 or so. For example, in …
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Hi,
Pepquerry run halt halfway through, when I was running with the following indexed MS datasets from PepQuerryDB,
CPTAC_TCGA_Breast_Cancer_Phosphoproteome_PDC000174, Proteogenomics_of_Gastric_Ca…
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Hello, I'm getting this error, can you please help me locate the source of the problem?
```2024-08-16 23:52:17 INFO ms2rescore.parse_psms // Reading PSMs from PSM file
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prvst updated
4 weeks ago
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@jpfeuffer are UNASSIGNEDPEPTIDE entries in this output format all PSMs?
Follow-up question: If I have a tsv output from TextExporter(idXML) I get a "flat" tsv table with only the peptide informati…
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How can I access the theoretical spectrums generated for a peptide?
As far as I understand MSGF+ generates theoretical spectrum for each peptide in the library, then compares each of them to the ex…
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Invalid spectra after preprocessing are [replaced by a dummy spectrum](https://github.com/Noble-Lab/casanovo/blob/7f97450c0757a1b15f715fb25795fb4cce5858bc/casanovo/data/datasets.py#L111), but Casanovo…